Sesgo en el uso de codones (Spanish Wikipedia)

Analysis of information sources in references of the Wikipedia article "Sesgo en el uso de codones" in Spanish language version.

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archive.org

«An evaluation of measures of synonymous codon usage bias». J. Mol. Evol. 47 (3): 268-74. September 1998. PMID 9732453. doi:10.1007/PL00006384.

biomedcentral.com

bmcbioinformatics.biomedcentral.com

Athey, John; Alexaki, Aikaterini; Osipova, Ekaterina; Rostovtsev, Alexandre; Santana-Quintero, Luis V.; Katneni, Upendra; Simonyan, Vahan; Kimchi-Sarfaty, Chava (2 de septiembre de 2017). «A new and updated resource for codon usage tables». BMC Bioinformatics 18 (391). PMC 5581930. PMID 28865429. doi:10.1186/s12859-017-1793-7.

doi.org

dx.doi.org

Athey, John; Alexaki, Aikaterini; Osipova, Ekaterina; Rostovtsev, Alexandre; Santana-Quintero, Luis V.; Katneni, Upendra; Simonyan, Vahan; Kimchi-Sarfaty, Chava (2 de septiembre de 2017). «A new and updated resource for codon usage tables». BMC Bioinformatics 18 (391). PMC 5581930. PMID 28865429. doi:10.1186/s12859-017-1793-7.
Dong, Hengjiang; Nilsson, Lars; Kurland, Charles G. (1996). «Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates». Journal of Molecular Biology 260 (5): 649-663. ISSN 0022-2836. doi:10.1006/jmbi.1996.0428.
Kanaya, Shigehiko; Yamada, Yuko; Kudo, Yoshihiro; Ikemura, Toshimichi (1999). «Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: gene expression level and species-specific diversity of codon usage based on multivariate analysis». Gene 238 (1): 143-155. ISSN 0378-1119. doi:10.1016/s0378-1119(99)00225-5.
Duret, Laurent (2000). «tRNA gene number and codon usage in the C. elegans genome are co-adapted for optimal translation of highly expressed genes». Trends in Genetics 16 (7): 287-289. ISSN 0168-9525. doi:10.1016/s0168-9525(00)02041-2.
Shin, Young C.; Bischof, Georg F.; Lauer, William A.; Desrosiers, Ronald C. (10 de septiembre de 2015). «Importance of codon usage for the temporal regulation of viral gene expression». Proceedings of the National Academy of Sciences 112 (45): 14030-14035. PMC 4653223. PMID 26504241. doi:10.1073/pnas.1515387112.
Lynn DJ, Singer GA, Hickey DA (octubre de 2002). «Synonymous codon usage is subject to selection in thermophilic bacteria». Nucleic Acids Res. 30 (19): 4272-7. PMC 140546. PMID 12364606. doi:10.1093/nar/gkf546.
Paul S, Bag SK, Das S, Harvill ET, Dutta C (2008). «Molecular signature of hypersaline adaptation: insights from genome and proteome composition of halophilic prokaryotes». Genome Biol. 9 (4): R70. PMC 2643941. PMID 18397532. doi:10.1186/gb-2008-9-4-r70.
Kober, K. M.; Pogson, G. H. (2013). «Genome-Wide Patterns of Codon Bias Are Shaped by Natural Selection in the Purple Sea Urchin, Strongylocentrotus purpuratus». G3 3 (7): 1069-1083. PMC 3704236. PMID 23637123. doi:10.1534/g3.113.005769.
McInerney, James O. (1 de septiembre de 1998). «Replicational and transcriptional selection on codon usage in Borrelia burgdorferi». Proceedings of the National Academy of Sciences 95 (18): 10698-10703. ISSN 0027-8424. PMC 27958. PMID 9724767. doi:10.1073/pnas.95.18.10698.
Seward, Emily; Kelly, Steve (2016). «Dietary nitrogen alters codon bias and genome composition in parasitic microorganisms». Genome Biology 17 (226): 3-15. PMC 5109750. PMID 27842572. doi:10.1186/s13059-016-1087-9.
Hershberg, R; Petrov, D. A. (2008). «Selection on codon bias». Annual Review of Genetics 42: 287-99. PMID 18983258. doi:10.1146/annurev.genet.42.110807.091442.
Novoa, E. M.; Ribas De Pouplana, L (2012). «Speeding with control: Codon usage, tRNAs, and ribosomes». Trends in Genetics 28 (11): 574-81. PMID 22921354. doi:10.1016/j.tig.2012.07.006.
Plotkin, J. B.; Kudla, G (2011). «Synonymous but not the same: The causes and consequences of codon bias». Nature Reviews Genetics 12 (1): 32-42. PMC 3074964. PMID 21102527. doi:10.1038/nrg2899.
Spencer, P. S.; Barral, J. M. (2012). «Genetic Code Redundancy and Its Influence on the Encoded Polypeptides». Computational and Structural Biotechnology Journal 1: 1-8. doi:10.5936/csbj.201204006.
«An evaluation of measures of synonymous codon usage bias». J. Mol. Evol. 47 (3): 268-74. September 1998. PMID 9732453. doi:10.1007/PL00006384.
Ikemura T (September 1981). «Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system.». J. Mol. Biol. 151 (3): 389-409. PMID 6175758. doi:10.1016/0022-2836(81)90003-6.
«Relative codon adaptation: a generic codon bias index for prediction of gene expression». DNA Res. 17 (3): 185-96. June 2010. PMC 2885275. PMID 20453079. doi:10.1093/dnares/dsq012.
Sharp, Paul M.; Li, Wen-Hsiung (1987). «The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications». Nucleic Acids Research 15 (3): 1281-1295. PMC 340524. PMID 3547335. doi:10.1093/nar/15.3.1281.
«Comparison of correspondence analysis methods for synonymous codon usage in bacteria». DNA Res. 15 (6): 357-65. diciembre de 2008. PMC 2608848. PMID 18940873. doi:10.1093/dnares/dsn028.

doi.org

Dong, Hengjiang; Nilsson, Lars; Kurland, Charles G. (1996). «Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates». Journal of Molecular Biology 260 (5): 649-663. ISSN 0022-2836. doi:10.1006/jmbi.1996.0428.
Kanaya, Shigehiko; Yamada, Yuko; Kudo, Yoshihiro; Ikemura, Toshimichi (1999). «Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: gene expression level and species-specific diversity of codon usage based on multivariate analysis». Gene 238 (1): 143-155. ISSN 0378-1119. doi:10.1016/s0378-1119(99)00225-5.
Duret, Laurent (2000). «tRNA gene number and codon usage in the C. elegans genome are co-adapted for optimal translation of highly expressed genes». Trends in Genetics 16 (7): 287-289. ISSN 0168-9525. doi:10.1016/s0168-9525(00)02041-2.

issn.org

portal.issn.org

Dong, Hengjiang; Nilsson, Lars; Kurland, Charles G. (1996). «Co-variation of tRNA abundance and codon usage in Escherichia coli at different growth rates». Journal of Molecular Biology 260 (5): 649-663. ISSN 0022-2836. doi:10.1006/jmbi.1996.0428.
Kanaya, Shigehiko; Yamada, Yuko; Kudo, Yoshihiro; Ikemura, Toshimichi (1999). «Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: gene expression level and species-specific diversity of codon usage based on multivariate analysis». Gene 238 (1): 143-155. ISSN 0378-1119. doi:10.1016/s0378-1119(99)00225-5.
Duret, Laurent (2000). «tRNA gene number and codon usage in the C. elegans genome are co-adapted for optimal translation of highly expressed genes». Trends in Genetics 16 (7): 287-289. ISSN 0168-9525. doi:10.1016/s0168-9525(00)02041-2.
McInerney, James O. (1 de septiembre de 1998). «Replicational and transcriptional selection on codon usage in Borrelia burgdorferi». Proceedings of the National Academy of Sciences 95 (18): 10698-10703. ISSN 0027-8424. PMC 27958. PMID 9724767. doi:10.1073/pnas.95.18.10698.

nih.gov

ncbi.nlm.nih.gov

Athey, John; Alexaki, Aikaterini; Osipova, Ekaterina; Rostovtsev, Alexandre; Santana-Quintero, Luis V.; Katneni, Upendra; Simonyan, Vahan; Kimchi-Sarfaty, Chava (2 de septiembre de 2017). «A new and updated resource for codon usage tables». BMC Bioinformatics 18 (391). PMC 5581930. PMID 28865429. doi:10.1186/s12859-017-1793-7.
Shin, Young C.; Bischof, Georg F.; Lauer, William A.; Desrosiers, Ronald C. (10 de septiembre de 2015). «Importance of codon usage for the temporal regulation of viral gene expression». Proceedings of the National Academy of Sciences 112 (45): 14030-14035. PMC 4653223. PMID 26504241. doi:10.1073/pnas.1515387112.
Ermolaeva MD (octubre de 2001). «Synonymous codon usage in bacteria». Curr Issues Mol Biol 3 (4): 91-7. PMID 11719972.
Lynn DJ, Singer GA, Hickey DA (octubre de 2002). «Synonymous codon usage is subject to selection in thermophilic bacteria». Nucleic Acids Res. 30 (19): 4272-7. PMC 140546. PMID 12364606. doi:10.1093/nar/gkf546.
Paul S, Bag SK, Das S, Harvill ET, Dutta C (2008). «Molecular signature of hypersaline adaptation: insights from genome and proteome composition of halophilic prokaryotes». Genome Biol. 9 (4): R70. PMC 2643941. PMID 18397532. doi:10.1186/gb-2008-9-4-r70.
Kober, K. M.; Pogson, G. H. (2013). «Genome-Wide Patterns of Codon Bias Are Shaped by Natural Selection in the Purple Sea Urchin, Strongylocentrotus purpuratus». G3 3 (7): 1069-1083. PMC 3704236. PMID 23637123. doi:10.1534/g3.113.005769.
McInerney, James O. (1 de septiembre de 1998). «Replicational and transcriptional selection on codon usage in Borrelia burgdorferi». Proceedings of the National Academy of Sciences 95 (18): 10698-10703. ISSN 0027-8424. PMC 27958. PMID 9724767. doi:10.1073/pnas.95.18.10698.
Seward, Emily; Kelly, Steve (2016). «Dietary nitrogen alters codon bias and genome composition in parasitic microorganisms». Genome Biology 17 (226): 3-15. PMC 5109750. PMID 27842572. doi:10.1186/s13059-016-1087-9.
Hershberg, R; Petrov, D. A. (2008). «Selection on codon bias». Annual Review of Genetics 42: 287-99. PMID 18983258. doi:10.1146/annurev.genet.42.110807.091442.
Novoa, E. M.; Ribas De Pouplana, L (2012). «Speeding with control: Codon usage, tRNAs, and ribosomes». Trends in Genetics 28 (11): 574-81. PMID 22921354. doi:10.1016/j.tig.2012.07.006.
Plotkin, J. B.; Kudla, G (2011). «Synonymous but not the same: The causes and consequences of codon bias». Nature Reviews Genetics 12 (1): 32-42. PMC 3074964. PMID 21102527. doi:10.1038/nrg2899.
«An evaluation of measures of synonymous codon usage bias». J. Mol. Evol. 47 (3): 268-74. September 1998. PMID 9732453. doi:10.1007/PL00006384.
Ikemura T (September 1981). «Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system.». J. Mol. Biol. 151 (3): 389-409. PMID 6175758. doi:10.1016/0022-2836(81)90003-6.
«Relative codon adaptation: a generic codon bias index for prediction of gene expression». DNA Res. 17 (3): 185-96. June 2010. PMC 2885275. PMID 20453079. doi:10.1093/dnares/dsq012.
Sharp, Paul M.; Li, Wen-Hsiung (1987). «The codon adaptation index-a measure of directional synonymous codon usage bias, and its potential applications». Nucleic Acids Research 15 (3): 1281-1295. PMC 340524. PMID 3547335. doi:10.1093/nar/15.3.1281.
«Comparison of correspondence analysis methods for synonymous codon usage in bacteria». DNA Res. 15 (6): 357-65. diciembre de 2008. PMC 2608848. PMID 18940873. doi:10.1093/dnares/dsn028.

oxfordjournals.org

dnaresearch.oxfordjournals.org

«Relative codon adaptation: a generic codon bias index for prediction of gene expression». DNA Res. 17 (3): 185-96. June 2010. PMC 2885275. PMID 20453079. doi:10.1093/dnares/dsq012.

pnas.org

Shin, Young C.; Bischof, Georg F.; Lauer, William A.; Desrosiers, Ronald C. (10 de septiembre de 2015). «Importance of codon usage for the temporal regulation of viral gene expression». Proceedings of the National Academy of Sciences 112 (45): 14030-14035. PMC 4653223. PMID 26504241. doi:10.1073/pnas.1515387112.
McInerney, James O. (1 de septiembre de 1998). «Replicational and transcriptional selection on codon usage in Borrelia burgdorferi». Proceedings of the National Academy of Sciences 95 (18): 10698-10703. ISSN 0027-8424. PMC 27958. PMID 9724767. doi:10.1073/pnas.95.18.10698.

sciencedirect.com

Ikemura T (September 1981). «Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: a proposal for a synonymous codon choice that is optimal for the E. coli translational system.». J. Mol. Biol. 151 (3): 389-409. PMID 6175758. doi:10.1016/0022-2836(81)90003-6.

semanticscholar.org

pdfs.semanticscholar.org

Sharp, Paul M.; Stenico, Michele; Peden, John F.; Lloyd, Andrew T. (1993). «Codon usage: mutational bias, translational selection, or both?». Biochem. Soc. Trans. 21: 835-841. Archivado desde el original el 20 de septiembre de 2018. Consultado el 5 de diciembre de 2018.

sourceforge.net

codonw.sourceforge.net

Peden J (15 de abril de 2005). «Codon usage indices». Correspondence Analysis of Codon Usage. SourceForge. Consultado el 20 de octubre de 2010.

web.archive.org

Sharp, Paul M.; Stenico, Michele; Peden, John F.; Lloyd, Andrew T. (1993). «Codon usage: mutational bias, translational selection, or both?». Biochem. Soc. Trans. 21: 835-841. Archivado desde el original el 20 de septiembre de 2018. Consultado el 5 de diciembre de 2018.